Cultivated genome references for protein database construction and high-resolution taxonomic annotation in metaproteomics.

ABSTRACT: Metaproteomics offers a profound understanding of the functional dynamics of the gut microbiome, which is crucial for personalized healthcare strategies. The selection of an appropriate database is a critical step for the identification of peptides and proteins, as well as for the provision of accurate taxonomic and functional annotations. The matched metagenomic-derived database is considered to be the best, but its limitations include the identification of low-abundance organisms and taxonomic resolution. Herein, we constructed a protein database (DBCGR2) based on Cultivated Genome Reference 2 (CGR2) and developed a complete peptide-centric analysis workflow for database searching and for the annotation of taxonomy and function. This workflow was subsequently appraised in comparison with

SUBMITTER: Gao X 

PROVIDER: S-EPMC11792528 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature